Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 56 of 100
Found at i:13246552 original size:16 final size:16
Alignment explanation
Indices: 13246527--13246557 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13246517 GTCATGGGTA
13246527 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
*
13246543 AAAAAGTAAAAAAAA
1 AAAAAATAAAAAAAA
13246558 AAGGGTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:13247837 original size:19 final size:19
Alignment explanation
Indices: 13247773--13247847 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
13247763 TAATTATTAT
*
13247773 TTGCATGATTATATTTTGA
1 TTGCATGATTATATTATGA
* *
13247792 ATG-ATTATTAATATTAT-A
1 TTGCATGATT-ATATTATGA
13247810 TTTTTGCATGATTATATTATGA
1 ---TTGCATGATTATATTATGA
13247832 TTGCATGA-TATATTAT
1 TTGCATGATTATATTAT
13247848 ATTATTGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
18 14 0.31
19 16 0.36
21 9 0.20
22 6 0.13
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (19 bp):
TTGCATGATTATATTATGA
Found at i:13247845 original size:39 final size:38
Alignment explanation
Indices: 13247757--13247860 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 38
13247747 ATGATTTTTA
* *
13247757 ATATATTAATTATTATTTGCATGATTATATTTTGAATGATT
1 ATATATT-A-TATT-TTTGCATGATTATATTATGAATGATG
*
13247798 ATTAATATTATATTTTTGCATGATTATATTATGATTGCATG
1 A-T-ATATTATATTTTTGCATGATTATATTATGAATG-ATG
*
13247839 ATATATTATATTATTGCATGAT
1 ATATATTATATTTTTGCATGAT
13247861 ATTATTTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 19 0.34
40 22 0.39
41 8 0.14
42 2 0.04
43 5 0.09
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.52
Consensus pattern (38 bp):
ATATATTATATTTTTGCATGATTATATTATGAATGATG
Found at i:13247856 original size:20 final size:20
Alignment explanation
Indices: 13247802--13247862 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
13247792 ATGATTATTA
*
13247802 ATATTATATTTTTGCATGAT
1 ATATTATATTATTGCATGAT
*
13247822 -TA-TATTATGATTGCATGAT
1 ATATTA-TATTATTGCATGAT
13247841 ATATTATATTATTGCATGAT
1 ATATTATATTATTGCATGAT
13247861 AT
1 AT
13247863 TATTTTGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.40
20 17 0.49
21 2 0.06
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (20 bp):
ATATTATATTATTGCATGAT
Found at i:13247872 original size:15 final size:16
Alignment explanation
Indices: 13247823--13247876 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 16
13247813 TTGCATGATT
*
13247823 ATATTATGATTGCATG
1 ATATTATTATTGCATG
13247839 ATATATTATATTATTGCATG
1 --ATA-T-TATTATTGCATG
13247859 ATATTATT-TTGCATG
1 ATATTATTATTGCATG
13247874 ATA
1 ATA
13247877 ATTTTTGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 10 0.30
16 4 0.12
17 1 0.03
18 6 0.18
19 1 0.03
20 11 0.33
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (16 bp):
ATATTATTATTGCATG
Found at i:13247884 original size:14 final size:15
Alignment explanation
Indices: 13247846--13247884 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13247836 ATGATATATT
13247846 ATATTATTGCATGATA
1 ATATT-TTGCATGATA
*
13247862 TTATTTTGCATGATA
1 ATATTTTGCATGATA
13247877 AT-TTTTGC
1 ATATTTTGC
13247885 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (15 bp):
ATATTTTGCATGATA
Found at i:13249098 original size:10 final size:10
Alignment explanation
Indices: 13249083--13249117 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
13249073 CTACTTGTAA
13249083 ATTTATATAT
1 ATTTATATAT
13249093 ATTTATATAT
1 ATTTATATAT
*
13249103 ATATATATATT
1 ATTTATATA-T
13249114 ATTT
1 ATTT
13249118 GCACACTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTATATAT
Found at i:13249160 original size:21 final size:21
Alignment explanation
Indices: 13249131--13249178 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13249121 CACTAACTCT
*
13249131 TTATGTTGTTCTCTATATATA
1 TTATATTGTTCTCTATATATA
* *
13249152 TTATATTGTTCTTTGTATATA
1 TTATATTGTTCTCTATATATA
13249173 TTATAT
1 TTATAT
13249179 GTATACTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.60
Consensus pattern (21 bp):
TTATATTGTTCTCTATATATA
Found at i:13253644 original size:20 final size:20
Alignment explanation
Indices: 13253619--13253667 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
13253609 TGGATTATCC
13253619 CATTTGCATCATTTAGAAAG
1 CATTTGCATCATTTAGAAAG
*
13253639 CATTTGTATCATTTAGAAAG
1 CATTTGCATCATTTAGAAAG
13253659 CATTTGCAT
1 CATTTGCAT
13253668 AACATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (20 bp):
CATTTGCATCATTTAGAAAG
Found at i:13253959 original size:45 final size:43
Alignment explanation
Indices: 13253910--13254028 Score: 107
Period size: 44 Copynumber: 2.7 Consensus size: 43
13253900 TGTGAAACAC
*
13253910 TAAAATTTTTTAATATGAATCTTTGAAATTGTGGATGCGAATCCT
1 TAAAATTTTTAAATATGAATCTTT-AAATT-TGGATGCGAATCCT
* * * * *
13253955 TAAAAATTTTAAAT-TAAAATCTTTAACATTTGGGTGTGAATCTT
1 TAAAATTTTTAAATAT-GAATCTTTAA-ATTTGGATGCGAATCCT
* *
13253999 TGAAATTTTTGAATGA-GAATCTTTAAATTT
1 TAAAATTTTTAAAT-ATGAATCTTTAAATTT
13254029 TAGAGGTGAG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
43 4 0.07
44 34 0.57
45 22 0.37
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (43 bp):
TAAAATTTTTAAATATGAATCTTTAAATTTGGATGCGAATCCT
Found at i:13254038 original size:23 final size:22
Alignment explanation
Indices: 13253972--13254038 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 22
13253962 TTTAAATTAA
*
13253972 AATCTTTAACA-TTTG-GGTGTG
1 AATCTTTAA-ATTTTGAGGTGAG
*
13253993 AATCTTTGAAATTTTTGA-ATGAG
1 AATCTTT-AAA-TTTTGAGGTGAG
13254016 AATCTTTAAATTTTAGAGGTGAG
1 AATCTTTAAATTTT-GAGGTGAG
13254039 CCTTGAAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
21 12 0.32
22 7 0.19
23 18 0.49
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (22 bp):
AATCTTTAAATTTTGAGGTGAG
Found at i:13254233 original size:17 final size:17
Alignment explanation
Indices: 13254208--13254240 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13254198 TGATTTTTTG
13254208 CAAAATTGAAATTCTTC
1 CAAAATTGAAATTCTTC
*
13254225 CAAACTTGAAATTCTT
1 CAAAATTGAAATTCTT
13254241 GCGAATCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (17 bp):
CAAAATTGAAATTCTTC
Found at i:13254254 original size:17 final size:17
Alignment explanation
Indices: 13254233--13254357 Score: 83
Period size: 17 Copynumber: 7.3 Consensus size: 17
13254223 TCCAAACTTG
13254233 AAATTCTTGCGAATCTT
1 AAATTCTTGCGAATCTT
* * *
13254250 CAATTCTTGTGAATTTTT
1 AAATTCTTGCGAA-TCTT
** *
13254268 TTATGTCTTGCGAATCTA
1 AAAT-TCTTGCGAATCTT
* * *
13254286 AAAGTCTTGCGAAACTA
1 AAATTCTTGCGAATCTT
* * *
13254303 AAATTCTTACGAACCTG
1 AAATTCTTGCGAATCTT
* *
13254320 AAATTCTTACGAAT-AT
1 AAATTCTTGCGAATCTT
13254336 AAATTCTTGCGAA-CTT
1 AAATTCTTGCGAATCTT
13254352 GAAATT
1 -AAATT
13254358 TTTGTGCTTG
Statistics
Matches: 83, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
16 13 0.16
17 54 0.65
18 8 0.10
19 8 0.10
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (17 bp):
AAATTCTTGCGAATCTT
Found at i:13254537 original size:17 final size:17
Alignment explanation
Indices: 13254483--13254539 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
13254473 GAGTTCTTAA
*
13254483 GAATATGAAATTCATGT
1 GAATATGAAATTCCTGT
* *
13254500 GAA-ATTG-AATTTCTTT
1 GAATA-TGAAATTCCTGT
13254516 CGAATATGAAATTCCTGT
1 -GAATATGAAATTCCTGT
13254534 GAATAT
1 GAATAT
13254540 AAAAAAATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 7 0.23
17 16 0.52
18 8 0.26
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (17 bp):
GAATATGAAATTCCTGT
Found at i:13254690 original size:18 final size:17
Alignment explanation
Indices: 13254646--13254705 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
13254636 GCAAAACTTA
*
13254646 AAATCT-TGTGAATCT-
1 AAATCTCTGTGAATTTG
13254661 AACATCTCTGTGAAATTTG
1 AA-ATCTCTGTG-AATTTG
*
13254680 AAATCTTTGTGAATTTG
1 AAATCTCTGTGAATTTG
*
13254697 AAACCTCTG
1 AAATCTCTG
13254706 ATAATCTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 2 0.05
16 4 0.11
17 17 0.46
18 12 0.32
19 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (17 bp):
AAATCTCTGTGAATTTG
Found at i:13254809 original size:18 final size:18
Alignment explanation
Indices: 13254609--13254809 Score: 53
Period size: 17 Copynumber: 11.5 Consensus size: 18
13254599 CTCTATGAAA
13254609 CTTGAAATC-TTGCAAAT
1 CTTGAAATCTTTGCAAAT
*
13254626 C-T-AAATCTTTGCAAAA
1 CTTGAAATCTTTGCAAAT
*
13254642 CTTAAAATCTTGTG--AAT
1 CTTGAAATCTT-TGCAAAT
13254659 C-T-AACATCTCTGTG-AAAT
1 CTTGAA-ATCT-T-TGCAAAT
**
13254677 -TTGAAATCTTTGTGAAT
1 CTTGAAATCTTTGCAAAT
* *
13254694 -TTGAAACCTCTG-ATAAT
1 CTTGAAATCTTTGCA-AAT
*
13254711 CTTG-AATCATTTATG-AACGT
1 CTTGAAATC--TT-TGCAA-AT
* *
13254731 -TTGGAATCTTTGCAAAA
1 CTTGAAATCTTTGCAAAT
*
13254748 CTTAAAATTCTTGTG--AAT
1 CTTGAAA-TCTT-TGCAAAT
*
13254766 C-TGAAAATCTTTTCAAAT
1 CTTG-AAATCTTTGCAAAT
13254784 CTTG-AATCTTTGCAAAAT
1 CTTGAAATCTTTGC-AAAT
13254802 -TTGAAATC
1 CTTGAAATC
13254810 ATTACGAATT
Statistics
Matches: 140, Mismatches: 17, Indels: 53
0.67 0.08 0.25
Matches are distributed among these distances:
15 7 0.05
16 17 0.12
17 47 0.34
18 44 0.31
19 15 0.11
20 10 0.07
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
CTTGAAATCTTTGCAAAT
Found at i:13255393 original size:17 final size:18
Alignment explanation
Indices: 13255358--13255402 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
13255348 CTAAAAAAAT
* * *
13255358 TTTTAATTTTGGTTTTAA
1 TTTTGATTTTAGTTCTAA
13255376 -TTTGATTTTAGTTCTAA
1 TTTTGATTTTAGTTCTAA
13255393 TTTTGATTTT
1 TTTTGATTTT
13255403 TGGTGTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (18 bp):
TTTTGATTTTAGTTCTAA
Found at i:13255469 original size:20 final size:18
Alignment explanation
Indices: 13255446--13255490 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
13255436 GTCAAAGAGC
13255446 AAAAAAAAAATCAAAAGTTA
1 AAAAAAAAAATC-AAAG-TA
*
13255466 AAAAAAAAAGTCAAAGTA
1 AAAAAAAAAATCAAAGTA
13255484 AAAAAAA
1 AAAAAAA
13255491 GAGGTCAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
19 4 0.17
20 11 0.46
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (18 bp):
AAAAAAAAAATCAAAGTA
Found at i:13255497 original size:19 final size:19
Alignment explanation
Indices: 13255446--13255490 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
13255436 GTCAAAGAGC
13255446 AAAAAAAAAA-TCAAAAGTT
1 AAAAAAAAAAGTC-AAAGTT
13255465 AAAAAAAAAAGTCAAAG-T
1 AAAAAAAAAAGTCAAAGTT
13255483 AAAAAAAA
1 AAAAAAAA
13255491 GAGGTCAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.36
19 14 0.56
20 2 0.08
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAAAAGTCAAAGTT
Found at i:13256747 original size:22 final size:23
Alignment explanation
Indices: 13256722--13256773 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
13256712 TGCTTGCACA
*
13256722 ATTAATTGCATGATTATT-ATTT
1 ATTAATTGCATGATTATTAATAT
* *
13256744 ATTATTTGCATGATTTTTAATAT
1 ATTAATTGCATGATTATTAATAT
13256767 ATTAATT
1 ATTAATT
13256774 ATTTTTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (23 bp):
ATTAATTGCATGATTATTAATAT
Found at i:13256856 original size:44 final size:39
Alignment explanation
Indices: 13256763--13256859 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 39
13256753 ATGATTTTTA
* *
13256763 ATATATTA-ATTATTTTTTGTATGATTATAGTTTGCATG
1 ATATATTATATTATTTTTTGCATGATTATAGATTGCATG
13256801 AT-TATTAATATTATATTTTTGCATGATTACATTATGATTGCATG
1 ATATATT-ATATTAT-TTTTTGCATGATT--A-TA-GATTGCATG
13256845 ATATATTATATTATT
1 ATATATTATATTATT
13256860 GCATGATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
37 4 0.08
38 3 0.06
39 5 0.10
40 12 0.24
42 1 0.02
43 3 0.06
44 17 0.35
45 4 0.08
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (39 bp):
ATATATTATATTATTTTTTGCATGATTATAGATTGCATG
Found at i:13256862 original size:20 final size:20
Alignment explanation
Indices: 13256808--13256868 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
13256798 ATGATTATTA
*
13256808 ATATTATATTTTTGCATGAT
1 ATATTATATTATTGCATGAT
* *
13256828 -TA-CATTATGATTGCATGAT
1 ATATTA-TATTATTGCATGAT
13256847 ATATTATATTATTGCATGAT
1 ATATTATATTATTGCATGAT
13256867 AT
1 AT
13256869 TATTTTGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.42
20 17 0.52
21 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (20 bp):
ATATTATATTATTGCATGAT
Found at i:13256890 original size:14 final size:15
Alignment explanation
Indices: 13256852--13256890 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13256842 ATGATATATT
13256852 ATATTATTGCATGATA
1 ATATT-TTGCATGATA
*
13256868 TTATTTTGCATGATA
1 ATATTTTGCATGATA
13256883 AT-TTTTGC
1 ATATTTTGC
13256891 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (15 bp):
ATATTTTGCATGATA
Found at i:13259188 original size:18 final size:18
Alignment explanation
Indices: 13259165--13259199 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13259155 TAAAAATAAA
13259165 ATATATTTAT-ATTTATTT
1 ATATA-TTATCATTTATTT
13259183 ATATATTATCATTTATT
1 ATATATTATCATTTATT
13259200 AAAATTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATATTATCATTTATTT
Found at i:13259649 original size:14 final size:13
Alignment explanation
Indices: 13259607--13259652 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
13259597 TCAAAAAAAA
*
13259607 AAAATTTTATA-T
1 AAAATTTCATAGT
13259619 AAAATTTCATAGT
1 AAAATTTCATAGT
13259632 AAAATTTCATAGGT
1 AAAATTTCATA-GT
13259646 AAAATTT
1 AAAATTT
13259653 ATGAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 10 0.32
13 12 0.39
14 9 0.29
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (13 bp):
AAAATTTCATAGT
Found at i:13259933 original size:12 final size:12
Alignment explanation
Indices: 13259903--13259944 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
13259893 TTGATGAGTT
13259903 ATTTTAATTTATCG
1 ATTTTAATTT-T-G
13259917 ATTTTAATTTTG
1 ATTTTAATTTTG
*
13259929 ATTTTAATTTTT
1 ATTTTAATTTTG
13259941 ATTT
1 ATTT
13259945 ACTTATTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 16 0.59
13 1 0.04
14 10 0.37
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:13260915 original size:8 final size:8
Alignment explanation
Indices: 13260886--13260915 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13260876 TTATTTAATA
*
13260886 TATATATT
1 TATATTTT
13260894 TATATTTT
1 TATATTTT
13260902 TATATTTT
1 TATATTTT
13260910 TATATT
1 TATATT
13260916 AATAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TATATTTT
Found at i:13265730 original size:13 final size:13
Alignment explanation
Indices: 13265712--13265741 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13265702 ATTCAAATTT
*
13265712 TTTTATTTTTTAC
1 TTTTATTTTTTAA
13265725 TTTTATTTTTTAA
1 TTTTATTTTTTAA
13265738 TTTT
1 TTTT
13265742 TCTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:13265734 original size:21 final size:20
Alignment explanation
Indices: 13265708--13265776 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
13265698 GGCAATTCAA
13265708 ATTTTTTTATTTTTTACTTTT
1 ATTTTTTTATTTTTT-CTTTT
* *
13265729 A-TTTTTTAATTTTTCTTTC
1 ATTTTTTTATTTTTTCTTTT
*
13265748 ATTTTTTTCCTTTTTT-TTTT
1 ATTTTTTT-ATTTTTTCTTTT
13265768 AGTTTTTTT
1 A-TTTTTTT
13265777 TTAATTAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 5 0.12
20 22 0.55
21 13 0.32
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.80
Consensus pattern (20 bp):
ATTTTTTTATTTTTTCTTTT
Found at i:13265776 original size:15 final size:16
Alignment explanation
Indices: 13265758--13265798 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
13265748 ATTTTTTTCC
13265758 TTTTTTTT--TTAG-T
1 TTTTTTTTAATTAGAT
13265771 TTTTTTTTAATTAGAT
1 TTTTTTTTAATTAGAT
*
13265787 TTTTTTTAAATT
1 TTTTTTTTAATT
13265799 TAACGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
15 4 0.17
16 12 0.50
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTTTTTTAATTAGAT
Found at i:13265789 original size:16 final size:15
Alignment explanation
Indices: 13265758--13265795 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
13265748 ATTTTTTTCC
13265758 TTTTTTTT--TTAGT
1 TTTTTTTTAATTAGT
*
13265771 TTTTTTTTAATTAGA
1 TTTTTTTTAATTAGT
13265786 TTTTTTTTAA
1 TTTTTTTTAA
13265796 ATTTAACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
15 14 0.64
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTTTTTAATTAGT
Found at i:13266704 original size:17 final size:15
Alignment explanation
Indices: 13266676--13266710 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
13266666 ACCTCATTTG
13266676 TTTTTTTTTTTTATA
1 TTTTTTTTTTTTATA
13266691 TTTTTTTGTATTTTATA
1 TTTTTTT-T-TTTTATA
13266708 TTT
1 TTT
13266711 ATTAATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 1 0.06
17 10 0.56
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTTTATA
Found at i:13266951 original size:16 final size:17
Alignment explanation
Indices: 13266917--13266982 Score: 66
Period size: 16 Copynumber: 4.0 Consensus size: 17
13266907 ATATATAAAA
13266917 ATATATATTTTATTATTT
1 ATATA-ATTTTATTATTT
*
13266935 ATTTAATTTTA-TATTT
1 ATATAATTTTATTATTT
* *
13266951 ATATAA-TATATTATAT
1 ATATAATTTTATTATTT
*
13266967 AAATAATTTT-TTATTT
1 ATATAATTTTATTATTT
13266983 TAATTTAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
15 3 0.08
16 24 0.62
17 8 0.21
18 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATAATTTTATTATTT
Found at i:13272519 original size:16 final size:18
Alignment explanation
Indices: 13272498--13272533 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
13272488 CGTCTTGCGA
13272498 TTGGAT-GTTTTAG-AAT
1 TTGGATCGTTTTAGTAAT
13272514 TTGGATCGTTTTAGTAAT
1 TTGGATCGTTTTAGTAAT
13272532 TT
1 TT
13272534 AGATTCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 7 0.39
18 5 0.28
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.53
Consensus pattern (18 bp):
TTGGATCGTTTTAGTAAT
Found at i:13272843 original size:27 final size:27
Alignment explanation
Indices: 13272788--13272844 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
13272778 AATATAAATA
* *
13272788 AATTTTAATAACTATTGACATAATTTT
1 AATTTTAATAACTATTGACAAAATCTT
* * *
13272815 AATTTTTATAACTTTTGATAAAATCTT
1 AATTTTAATAACTATTGACAAAATCTT
13272842 AAT
1 AAT
13272845 AACATTCGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (27 bp):
AATTTTAATAACTATTGACAAAATCTT
Found at i:13273361 original size:22 final size:22
Alignment explanation
Indices: 13273326--13273379 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
13273316 GCGATTTACT
* *
13273326 ACTAAAATATTAATGATGCATC
1 ACTAAATTAGTAATGATGCATC
** *
13273348 ACTAAATTAGTAATGATTTATT
1 ACTAAATTAGTAATGATGCATC
13273370 ACTAAATTAG
1 ACTAAATTAG
13273380 CATTGATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (22 bp):
ACTAAATTAGTAATGATGCATC
Found at i:13273386 original size:22 final size:22
Alignment explanation
Indices: 13273348--13273392 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13273338 ATGATGCATC
*
13273348 ACTAAATTAGTAATGATTTATT
1 ACTAAATTAGCAATGATTTATT
*
13273370 ACTAAATTAGCATTGATTTATT
1 ACTAAATTAGCAATGATTTATT
13273392 A
1 A
13273393 TTAATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (22 bp):
ACTAAATTAGCAATGATTTATT
Found at i:13273408 original size:22 final size:21
Alignment explanation
Indices: 13273358--13273520 Score: 78
Period size: 22 Copynumber: 7.5 Consensus size: 21
13273348 ACTAAATTAG
* *
13273358 TAATGATTTATTACTAAATTA
1 TAATGATTTATTATTAATTTA
* *
13273379 GCATTGATTTATTATTAATTTA
1 -TAATGATTTATTATTAATTTA
* * * *
13273401 TAAATGATTCACTACTAAGTTA
1 T-AATGATTTATTATTAATTTA
**
13273423 TGAAT-AGTTT-TTATTAAATTGG
1 T-AATGA-TTTATTATT-AATTTA
** * * *
13273445 TGGTGATTTACTACTAAGTTA
1 TAATGATTTATTATTAATTTA
* * *
13273466 TTGATGATTTATTATAAAATTA
1 -TAATGATTTATTATTAATTTA
13273488 TAATTGATTTATTATTAATTTA
1 TAA-TGATTTATTATTAATTTA
13273510 CTAATGATTTA
1 -TAATGATTTA
13273521 CTAAAAAATA
Statistics
Matches: 101, Mismatches: 32, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
21 13 0.13
22 85 0.84
23 3 0.03
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
TAATGATTTATTATTAATTTA
Found at i:13273606 original size:22 final size:22
Alignment explanation
Indices: 13273578--13273684 Score: 80
Period size: 22 Copynumber: 5.0 Consensus size: 22
13273568 TCACAACTAA
13273578 ATTATTAATAATTTACTATTAT
1 ATTATTAATAATTTACTATTAT
* * *
13273600 ATTATTAGTAATTTATTACTA-
1 ATTATTAATAATTTACTATTAT
* * *
13273621 AGTTA-T--CAATTTACTACTAA
1 A-TTATTAATAATTTACTATTAT
* *
13273641 ATTATTAGTGATTTACTATTAT
1 ATTATTAATAATTTACTATTAT
*
13273663 ATT-TTTATATATTTACTATTAT
1 ATTATTAATA-ATTTACTATTAT
13273685 GTTGTCATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
19 14 0.21
20 2 0.03
21 5 0.07
22 46 0.69
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTATTAATAATTTACTATTAT
Found at i:13273631 original size:19 final size:19
Alignment explanation
Indices: 13273609--13273645 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13273599 TATTATTAGT
* *
13273609 AATTTATTACTAAGTTATC
1 AATTTACTACTAAATTATC
13273628 AATTTACTACTAAATTAT
1 AATTTACTACTAAATTAT
13273646 TAGTGATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTTACTACTAAATTATC
Found at i:13273677 original size:63 final size:64
Alignment explanation
Indices: 13273543--13273665 Score: 176
Period size: 63 Copynumber: 1.9 Consensus size: 64
13273533 AATAATTAAC
*
13273543 TAATTTATTACTAAATTATCGCTATTCACAACTAAATTATTAATAATTTACTATTATATTATTAG
1 TAATTTATTACTAAATTATC-CAATTCACAACTAAATTATTAATAATTTACTATTATATTATTAG
* * * * *
13273608 TAATTTATTACTAAGTTAT-CAATTTACTACTAAATTATTAGTGATTTACTATTATATT
1 TAATTTATTACTAAATTATCCAATTCACAACTAAATTATTAATAATTTACTATTATATT
13273666 TTTATATATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 34 0.65
65 18 0.35
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (64 bp):
TAATTTATTACTAAATTATCCAATTCACAACTAAATTATTAATAATTTACTATTATATTATTAG
Found at i:13273697 original size:22 final size:22
Alignment explanation
Indices: 13273651--13273702 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
13273641 ATTATTAGTG
* *
13273651 ATTTACTATTATATTTTTATAT
1 ATTTACTATTATATTGTCATAT
* *
13273673 ATTTACTATTATGTTGTCATTT
1 ATTTACTATTATATTGTCATAT
13273695 ATTTACTA
1 ATTTACTA
13273703 CATAATTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTTACTATTATATTGTCATAT
Found at i:13273804 original size:20 final size:21
Alignment explanation
Indices: 13273746--13273814 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
13273736 CCGGTATATC
13273746 ATTAAATTATATATAATTTACT
1 ATTAAATTATATATAATTTA-T
* *
13273768 ATCAAGTTAT-TACTAATTT-T
1 ATTAAATTATATA-TAATTTAT
13273788 ATTAAATTATATATAATTTACT
1 ATTAAATTATATATAATTTA-T
13273810 ATTAA
1 ATTAA
13273815 GCTATCAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 15 0.38
21 4 0.10
22 20 0.51
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.49
Consensus pattern (21 bp):
ATTAAATTATATATAATTTAT
Found at i:13273923 original size:22 final size:22
Alignment explanation
Indices: 13273896--13274078 Score: 103
Period size: 22 Copynumber: 8.5 Consensus size: 22
13273886 AAAAGTTAAT
13273896 TACTAAATTATTAATT-ATTTAC
1 TACTAAATTA-TAATTAATTTAC
* *
13273918 TACTAATTTATCATTAATTTAC
1 TACTAAATTATAATTAATTTAC
* * **
13273940 TACTAAGTTTTTTTGTAA-TT--
1 TACTAAATTATAAT-TAATTTAC
13273960 TACT--ATTATCAATTAA-TTAC
1 TACTAAATTAT-AATTAATTTAC
* * * *
13273980 TATTAAACTAAAAATAATTTAC
1 TACTAAATTATAATTAATTTAC
* * *
13274002 TATTAAATTATTACTAATTTAC
1 TACTAAATTATAATTAATTTAC
* * * *
13274024 TATTAAATTATCATTACTTTCC
1 TACTAAATTATAATTAATTTAC
*
13274046 TACTAAATTATCAA-TAATTAAC
1 TACTAAATTAT-AATTAATTTAC
*
13274068 TACTAAGTTAT
1 TACTAAATTAT
13274079 CATTTTTTTT
Statistics
Matches: 124, Mismatches: 28, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
18 8 0.06
19 1 0.01
20 7 0.06
21 9 0.07
22 95 0.77
23 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (22 bp):
TACTAAATTATAATTAATTTAC
Found at i:13273944 original size:44 final size:44
Alignment explanation
Indices: 13273896--13274078 Score: 119
Period size: 44 Copynumber: 4.2 Consensus size: 44
13273886 AAAAGTTAAT
*
13273896 TACTAAATTATTAATTATTTACTACTAATTTATCATTAATTTAC
1 TACTAAATTATTAATTATTTACTACTAAATTATCATTAATTTAC
* ** *
13273940 TACTAAGTT-TTTTTGTAATT--TACT--ATTATCAATTAA-TTAC
1 TACTAAATTATTAAT-TATTTACTACTAAATTATC-ATTAATTTAC
* * ** * * * *
13273980 TATTAAACTAAAAATAATTTACTATTAAATTATTACTAATTTAC
1 TACTAAATTATTAATTATTTACTACTAAATTATCATTAATTTAC
* * * * *
13274024 TATTAAATTA-TCATTACTTTCCTACTAAATTATCAATAATTAAC
1 TACTAAATTATTAATTA-TTTACTACTAAATTATCATTAATTTAC
*
13274068 TACTAAGTTAT
1 TACTAAATTAT
13274079 CATTTTTTTT
Statistics
Matches: 101, Mismatches: 28, Indels: 19
0.68 0.19 0.13
Matches are distributed among these distances:
40 18 0.18
41 6 0.06
42 7 0.07
43 10 0.10
44 60 0.59
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (44 bp):
TACTAAATTATTAATTATTTACTACTAAATTATCATTAATTTAC
Found at i:13274195 original size:22 final size:22
Alignment explanation
Indices: 13274135--13274197 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
13274125 CATTTACAAC
* *
13274135 TATTATAATTGATTTATCATTA
1 TATTATTATTGATTTATTATTA
* * *
13274157 AAGTATTA-TGCAATTATTATTA
1 TATTATTATTG-ATTTATTATTA
13274179 TATTATTATTGATTTATTA
1 TATTATTATTGATTTATTA
13274198 AAAAATTATC
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (22 bp):
TATTATTATTGATTTATTATTA
Found at i:13274225 original size:22 final size:23
Alignment explanation
Indices: 13274200--13274252 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
13274190 ATTTATTAAA
13274200 AAATTATCAATT-ATTAACTT-TT
1 AAATTATCAATTAATTAA-TTATT
*
13274222 AAATTATC-ATTAATTTATTATT
1 AAATTATCAATTAATTAATTATT
13274244 AAATTATCA
1 AAATTATCA
13274253 CTATACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTATCAATTAATTAATTATT
Found at i:13276301 original size:50 final size:52
Alignment explanation
Indices: 13276238--13276340 Score: 156
Period size: 50 Copynumber: 2.0 Consensus size: 52
13276228 TAGATAAGAA
* *
13276238 GACTTGCAAAAGAAGAATTCTAAGAGAAAGGAGATT-TTAATAG-CAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGAAAAGAGATTCTTAATAGACAAGTTT
* *
13276288 GACTTGTAGAAGAAGAATTCTAAAAGAAAAGAGATTCTTAATAGACAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGAAAAGAGATTCTTAATAGACAAGTTT
13276340 G
1 G
13276341 TATGGTTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
50 32 0.68
51 7 0.15
52 8 0.17
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAAAGAAAAGAGATTCTTAATAGACAAGTTT
Found at i:13277692 original size:22 final size:19
Alignment explanation
Indices: 13277666--13277713 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
13277656 TGATTTTCAA
13277666 AATTTTTTTAAAAATAAAAAAT
1 AATTTTTTT--AAAT-AAAAAT
*
13277688 AATTTTTTTAAGTAAAAAT
1 AATTTTTTTAAATAAAAAT
13277707 AATTTTT
1 AATTTTT
13277714 GAGACTCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 13 0.52
20 3 0.12
22 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AATTTTTTTAAATAAAAAT
Found at i:13278813 original size:59 final size:57
Alignment explanation
Indices: 13278748--13279259 Score: 697
Period size: 58 Copynumber: 8.7 Consensus size: 57
13278738 TTTTGTGTAG
13278748 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTGAAAATTTACTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAAATTTA-TTTTAA
* *
13278807 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG-AAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTA-TTTTAA
13278865 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTT-TAA
* *
13278921 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAAATTT-ATTTT-AA
** * *
13278982 AAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGAAAATTTA-TTTTAA
* *
13279041 GGAAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTT-TAA
* *
13279099 GGGAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTT-TAA
* * * *
13279157 GGAAAATTGATACTTTTAGCTTTTCCTCAAAAATATTTTTTTTGGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTT-GAAAATTT-A-TTTTAA
*
13279218 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
13279260 TGGAATTTTT
Statistics
Matches: 406, Mismatches: 31, Indels: 31
0.87 0.07 0.07
Matches are distributed among these distances:
55 10 0.02
56 34 0.08
57 21 0.05
58 141 0.35
59 78 0.19
60 46 0.11
61 73 0.18
62 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTAA
Found at i:13279198 original size:234 final size:233
Alignment explanation
Indices: 13278750--13279261 Score: 819
Period size: 234 Copynumber: 2.2 Consensus size: 233
13278740 TTGTGTAGGG
*
13278750 AAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTGAAAATTTACTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATAATTTTTTTGAAAATTTACTTTTAAGAAAAATT
*
13278815 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTTAAGGAAAATTGATACTT
65 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTT
13278880 TCAACTTTTCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTT
130 TCAACTTTTCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTT
*
13278945 CCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAAA
195 CCTCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAA
** * *
13278984 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATAATTTTTTTGAAAATTTACTTTTAAGAAAAATT
* *
13279049 GATACTTTCAATTTTTCCCTAAAAATA-TTTTTTTGAAAATTTATTTCTAAGGGAAATTGATACT
65 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG-AAATTTATTTCTAAGGAAAATTGATACT
* *
13279113 TTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTTAGCT
129 TTCAAC-TTTTCCCAAAAATA-TTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACT
* * **
13279178 TTTCCTCAAAAATATTTTTTTTGGAAATTTTGATTTTTAAGG
192 TTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAA
*
13279220 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATAATTTTTTTG
13279262 GAATTTTTTA
Statistics
Matches: 257, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
233 10 0.04
234 116 0.45
235 15 0.06
236 116 0.45
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (233 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATAATTTTTTTGAAAATTTACTTTTAAGAAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTT
CAACTTTTCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTC
CTCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAA
Found at i:13279311 original size:16 final size:16
Alignment explanation
Indices: 13279280--13279328 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
13279270 TATTTTTATT
*
13279280 TAAAGAAAATAGAATAA
1 TAAAAAAAATA-AATAA
13279297 TAAAAAAAATAAATAA
1 TAAAAAAAATAAATAA
13279313 -AAATAAAAATAAATAA
1 TAAA-AAAAATAAATAA
13279329 AGAAAAGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 3 0.10
16 17 0.57
17 10 0.33
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (16 bp):
TAAAAAAAATAAATAA
Found at i:13279329 original size:16 final size:16
Alignment explanation
Indices: 13279285--13279360 Score: 66
Period size: 16 Copynumber: 4.5 Consensus size: 16
13279275 TTATTTAAAG
13279285 AAAATAGAATAATAAA-A
1 AAAATA-AATAA-AAATA
13279302 AAAATAAATAAAAATA
1 AAAATAAATAAAAATA
*
13279318 AAAATAAATAAAGAAAA
1 AAAATAAATAAA-AATA
13279335 GTAAAATAAA-ATAAAATA
1 --AAAATAAATA-AAAATA
*
13279353 AAGATAAA
1 AAAATAAA
13279361 AAGAATATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
15 3 0.06
16 25 0.49
17 9 0.18
18 4 0.08
19 10 0.20
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:13279367 original size:15 final size:15
Alignment explanation
Indices: 13279295--13279361 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
13279285 AAAATAGAAT
13279295 AATAAAA-AAAAT-A
1 AATAAAATAAAATAA
13279308 AATAAAAATAAAA-ATA
1 AAT-AAAATAAAATA-A
*
13279324 AATAAAGA-AAAGTAA
1 AATAAA-ATAAAATAA
13279339 AATAAAATAAAATAA
1 AATAAAATAAAATAA
13279354 AGATAAAA
1 A-ATAAAA
13279362 AGAATATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.07
14 5 0.11
15 24 0.55
16 12 0.27
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (15 bp):
AATAAAATAAAATAA
Found at i:13279783 original size:19 final size:20
Alignment explanation
Indices: 13279739--13279784 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
13279729 GAACACCGGT
*
13279739 GCCGGATTCTGGAAAATGTC
1 GCCGGAATCTGGAAAATGTC
* *
13279759 GTCGGAATCTGG-AAATTTC
1 GCCGGAATCTGGAAAATGTC
13279778 GCCGGAA
1 GCCGGAA
13279785 GTTGACCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (20 bp):
GCCGGAATCTGGAAAATGTC
Found at i:13280414 original size:3 final size:3
Alignment explanation
Indices: 13280406--13280545 Score: 80
Period size: 3 Copynumber: 45.3 Consensus size: 3
13280396 CAAAAACAAA
13280406 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAAT ATAT AACT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AA-T A-AT
* * *
13280454 ACAT -AT AA- ATCT AAT -CT AAT AAT AATT AA- AAA AAT AA- ATAT ATAT
1 A-AT AAT AAT A-AT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A-AT A-AT
*
13280499 ATT AAT ACAT AAT AAT AAT AAT AAT AAAT AAT AA- AAT ACAT AA- AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT
13280545 A
1 A
13280546 CAAAAGAAAT
Statistics
Matches: 111, Mismatches: 8, Indels: 36
0.72 0.05 0.23
Matches are distributed among these distances:
2 13 0.12
3 67 0.60
4 30 0.27
5 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13280512 original size:19 final size:19
Alignment explanation
Indices: 13280470--13280541 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
13280460 AAATCTAATC
13280470 TAATAATAATTAA-AA-AAA
1 TAATAATAA-TAATAATAAA
* *
13280488 TAA-ATATATATATTAATACA
1 TAATA-ATA-ATAATAATAAA
13280508 TAATAATAATAATAATAAA
1 TAATAATAATAATAATAAA
13280527 TAATAA-AATACATAA
1 TAATAATAATA-ATAA
13280542 AATACAAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.27
19 22 0.50
20 8 0.18
21 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATAATAATAATAAA
Found at i:13280542 original size:16 final size:17
Alignment explanation
Indices: 13280405--13280542 Score: 89
Period size: 16 Copynumber: 8.2 Consensus size: 17
13280395 ACAAAAACAA
13280405 AAATAATAATAATA-AT
1 AAATAATAATAATACAT
13280421 AATATAATAATAATA-AT
1 AA-ATAATAATAATACAT
13280438 AAATATATAACTATATACAT
1 AAATA-ATAA-TA-ATACAT
* *
13280458 ATA-AAT-CTAAT-C-T
1 AAATAATAATAATACAT
* *
13280471 -AATAATAATTAAAAAAAT
1 AAATAATAA-T-AATACAT
13280489 AAATATATATATTAATACAT
1 AAATA-ATA-A-TAATACAT
13280509 -AATAATAATAATA-AT
1 AAATAATAATAATACAT
13280524 AAATAATAA-AATACAT
1 AAATAATAATAATACAT
13280540 AAA
1 AAA
13280543 ATACAAAAGA
Statistics
Matches: 98, Mismatches: 8, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
12 1 0.01
13 4 0.04
14 1 0.01
15 9 0.09
16 27 0.28
17 21 0.21
18 8 0.08
19 12 0.12
20 12 0.12
21 3 0.03
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAATAATAATACAT
Found at i:13280542 original size:51 final size:50
Alignment explanation
Indices: 13280406--13280542 Score: 147
Period size: 51 Copynumber: 2.7 Consensus size: 50
13280396 CAAAAACAAA
13280406 AATAATAATAATAATAATATAATAATAATAATAAATATATAACTATATACAT
1 AATAATAATAATAATAA-ATAATAA-AATAATAAATATATAACTATATACAT
* * *
13280458 -ATAAATCTAAT-CTAAT-AATAATTAAAAAAATAAATATATATATTA-ATACAT
1 AAT-AA--TAATAATAATAAATAA-TAAAATAATAAATATATA-ACTATATACAT
13280509 AATAATAATAATAATAAATAATAAAATACATAAA
1 AATAATAATAATAATAAATAATAAAATA-ATAAA
13280543 ATACAAAAGA
Statistics
Matches: 71, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
49 4 0.06
50 10 0.14
51 38 0.54
52 11 0.15
53 4 0.06
54 4 0.06
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (50 bp):
AATAATAATAATAATAAATAATAAAATAATAAATATATAACTATATACAT
Found at i:13280900 original size:42 final size:41
Alignment explanation
Indices: 13280769--13281226 Score: 707
Period size: 42 Copynumber: 11.1 Consensus size: 41
13280759 TTTGACCAAA
* * *
13280769 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
13280810 GCTCCTCTAAACAGAGGCACCGCGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13280851 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
13280893 GCTCCTCTAAACAAAGGCA--ACGAAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
13280933 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
13280975 GCTCCTCTAAACAGAGGCA--ACGAAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
*
13281015 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
13281056 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
13281098 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
13281140 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13281180 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
13281221 GCTCCT
1 GCTCCT
13281227 TGACAATCAT
Statistics
Matches: 390, Mismatches: 12, Indels: 30
0.90 0.03 0.07
Matches are distributed among these distances:
40 110 0.28
41 122 0.31
42 158 0.41
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:13280926 original size:82 final size:82
Alignment explanation
Indices: 13280769--13281226 Score: 721
Period size: 82 Copynumber: 5.6 Consensus size: 82
13280759 TTTGACCAAA
* * * * *
13280769 GCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCGC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
13280833 GACTTTGGAAAGTAAATT
66 AACTTT-GAAAGTAAATT
*
13280851 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAAAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
13280916 AACTTTGAAAGTAAATT
66 AACTTTGAAAGTAAATT
*
13280933 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
13280998 AACTTTGAAAGTAAATT
66 AACTTTGAAAGTAAATT
* *
13281015 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
13281078 TGACTTTTGAAAAGTAAATT
66 -AAC-TTTG-AAAGTAAATT
13281098 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
13281163 G--ACTTTGAAAGTAAATT
64 GAAACTTTGAAAGTAAATT
13281180 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAA-TAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCT
13281227 TGACAATCAT
Statistics
Matches: 353, Mismatches: 15, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
80 3 0.01
81 45 0.13
82 190 0.54
83 79 0.22
84 34 0.10
87 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
AACTTTGAAAGTAAATT
Found at i:13281106 original size:165 final size:160
Alignment explanation
Indices: 13280769--13281226 Score: 702
Period size: 165 Copynumber: 2.8 Consensus size: 160
13280759 TTTGACCAAA
* * * *
13280769 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCGCG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
*
13280834 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCT
64 ACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCT
*
13280899 CTAAACAAAGGCAACGAAACTTTGAAAGTAAATT
127 CTAAACAAAGGCAACCAAACTTTGAAAGTAAATT
13280933 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
13280998 AACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTC
64 -ACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTC
* *
13281063 TAAACAGAGGC-ACCATGACTTTTGAAAAGTAAATT
128 TAAACAAAGGCAACCA-AAC-TTTG-AAAGTAAATT
13281098 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
* *
13281163 GACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAATTGCTCCT
63 GACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCT
13281227 TGACAATCAT
Statistics
Matches: 275, Mismatches: 10, Indels: 17
0.91 0.03 0.06
Matches are distributed among these distances:
162 3 0.01
163 35 0.13
164 68 0.25
165 163 0.59
166 3 0.01
167 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (160 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAA
ACAAAGGCAACCAAACTTTGAAAGTAAATT
Found at i:13282437 original size:25 final size:24
Alignment explanation
Indices: 13282404--13282460 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
13282394 AATTTGAATC
13282404 TCTTTTTTCATTTTTCAT-TTTTCT
1 TCTTTTTTCATTTTTC-TCTTTTCT
* *
13282428 TCTTTCTTTCTTTTTTCTCTTTTTT
1 TCTTT-TTTCATTTTTCTCTTTTCT
13282453 TCTTTTTT
1 TCTTTTTT
13282461 TTTTCCATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (24 bp):
TCTTTTTTCATTTTTCTCTTTTCT
Found at i:13282453 original size:10 final size:9
Alignment explanation
Indices: 13282421--13282462 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
13282411 TCATTTTTCA
13282421 TTTTTCTTCT
1 TTTTTCTT-T
13282431 TTCTTTCTTT
1 TT-TTTCTTT
*
13282441 TTTCTC-TT
1 TTTTTCTTT
13282449 TTTTTCTTT
1 TTTTTCTTT
13282458 TTTTT
1 TTTTT
13282463 TTCCATCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 10 0.36
10 5 0.18
11 6 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:13282458 original size:7 final size:7
Alignment explanation
Indices: 13282404--13282464 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
13282394 AATTTGAATC
13282404 TCTTTTT
1 TCTTTTT
*
13282411 TCATTTT
1 TCTTTTT
*
13282418 TCATTTT
1 TCTTTTT
*
13282425 TCTTCTT
1 TCTTTTT
*
13282432 TCTTTCT
1 TCTTTTT
*
13282439 T-TTTTC
1 TCTTTTT
13282445 TCTTTTTT
1 TC-TTTTT
13282453 TCTTTTT
1 TCTTTTT
13282460 T-TTTT
1 TCTTTT
13282465 CCATCATCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
6 8 0.18
7 30 0.68
8 6 0.14
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.80
Consensus pattern (7 bp):
TCTTTTT
Found at i:13282461 original size:18 final size:18
Alignment explanation
Indices: 13282416--13282460 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
13282406 TTTTTTCATT
*
13282416 TTTCATTTTTCTTCTTTC
1 TTTCTTTTTTCTTCTTTC
*
13282434 TTTCTTTTTTC-TCTTTT
1 TTTCTTTTTTCTTCTTTC
13282451 TTTCTTTTTT
1 TTTCTTTTTT
13282461 TTTTCCATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTCTTTTTTCTTCTTTC
Found at i:13282463 original size:10 final size:10
Alignment explanation
Indices: 13282430--13282463 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
13282420 ATTTTTCTTC
13282430 TTTCTTTCTTT
1 TTTCTTT-TTT
*
13282441 TTTCTCTTTT
1 TTTCTTTTTT
13282451 TTTCTTTTTT
1 TTTCTTTTTT
13282461 TTT
1 TTT
13282464 TCCATCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:13282486 original size:15 final size:15
Alignment explanation
Indices: 13282456--13282490 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
13282446 CTTTTTTTCT
13282456 TTTTTTTTTCCATCA
1 TTTTTTTTTCCATCA
13282471 TCTTTTTTTTCC-TCA
1 T-TTTTTTTTCCATCA
13282486 TTTTT
1 TTTTT
13282491 CATCTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTTTCCATCA
Found at i:13286458 original size:58 final size:58
Alignment explanation
Indices: 13286331--13286851 Score: 714
Period size: 58 Copynumber: 8.9 Consensus size: 58
13286321 TTTTGTGTAG
*
13286331 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTTGAAAATTTACTTT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA-TATTTTTTTTG-AAATTTA-TTTCTAA
* *
13286391 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
*
13286449 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTAGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
*
13286505 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATA-TTTTTTTTGAAA-TTT-ATTTCTAA
* ** *
13286566 GAAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG-AAATTTATTTCTAA
* * *
13286625 GGAAAATTGATACTTTCAATTTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
* *
13286683 GGGAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG-AAATTTATTTCTAA
*
13286741 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTGGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTT-GAAA-TTT-ATTTCTAA
* *
13286802 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTT
13286852 TTTATTTTTA
Statistics
Matches: 417, Mismatches: 28, Indels: 33
0.87 0.06 0.07
Matches are distributed among these distances:
55 2 0.00
56 44 0.11
57 26 0.06
58 124 0.30
59 75 0.18
60 55 0.13
61 88 0.21
62 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
Found at i:13286751 original size:175 final size:175
Alignment explanation
Indices: 13286329--13286848 Score: 789
Period size: 175 Copynumber: 2.9 Consensus size: 175
13286319 TTTTTTGTGT
13286329 AGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTTGAAAATTTACTTT-TAAGA
1 AGGG-AAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGAAAATTTA-TTTCTAAGA
13286393 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTG-AAATTTATTTTTAAGGAAAAT
63 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAAT
* * *
13286456 TGATACTTTCAACTTTTCCCAAAAATA-TTTTTTAGAAATTTATTTCTA
127 TGATACTTTCAATTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTA
* * * *
13286504 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGAA
1 AGGGAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTT-ATTTCTAAGAA
**
13286569 AAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
64 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
13286634 ATACTTTCAATTTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTA
129 ATACTTTCAA-TTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTA
*
13286682 AGGGAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTCTAAGGAAA
1 AGGGAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAAGAAAA
* *
13286746 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAATTTTGATTTTTAAGAAAAATTG
66 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT-GAAAATTT-ATTTTTAAGGAAAATTG
*
13286811 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAA
129 ATACTTTCAA-TTTTTCCTAAAAATA-TTTTTTTGGAA
13286849 TTTTTTATTT
Statistics
Matches: 315, Mismatches: 20, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
173 2 0.01
174 47 0.15
175 93 0.30
176 55 0.17
177 53 0.17
178 65 0.21
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (175 bp):
AGGGAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAAGAAAA
ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATTGAT
ACTTTCAATTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTA
Found at i:13286844 original size:236 final size:234
Alignment explanation
Indices: 13286333--13286845 Score: 848
Period size: 236 Copynumber: 2.2 Consensus size: 234
13286323 TTGTGTAGGG
*
13286333 AAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTTGAAAATTTACTTTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAA-TATTTTTTTTGAAAATTTACTTTTAAGAAAAAT
* *
13286398 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTTAAGGAAAATTGATACT
65 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACT
13286463 TTCAACTTTTCCCAAAAATATTTTTTAGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTT
130 TTCAACTTTTCCCAAAAATATTTTTTAGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTT
*
13286528 TCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGA
195 TCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAAGA
** * *
13286568 AAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTACTTTTAAGAAAAAT
* * *
13286632 TGATACTTTCAATTTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTAAGGGAAATTGATACT
65 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACT
*
13286697 TTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACT
130 TTCAACTTTT-CCCAAAAATATTTTTTAG-AAATTTATTTCTAAGGAAAATTGATACTTTCAACT
* **
13286762 TTTCCTCAAAAATATTTTTTTTGGAAATTTTGATTTTTAAGA
193 TTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAAGA
13286804 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG
13286846 GAATTTTTTA
Statistics
Matches: 257, Mismatches: 17, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
234 101 0.39
235 44 0.17
236 109 0.42
237 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (234 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTACTTTTAAGAAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTT
TCAACTTTTCCCAAAAATATTTTTTAGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTT
CCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAAGA
Found at i:13286895 original size:16 final size:16
Alignment explanation
Indices: 13286869--13286941 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 16
13286859 TTATTGAAAG
13286869 AAAATAGAATAATAAA-A
1 AAAATA-AATAA-AAATA
13286886 AAAATAAATAAAAATA
1 AAAATAAATAAAAATA
*
13286902 AAAATAAATAAAGAAAA
1 AAAATAAATAAA-AATA
*
13286919 GTAAAATAAAATAAAGATA
1 --AAAAT-AAATAAAAATA
13286938 AAAA
1 AAAA
13286942 GAATATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 3 0.06
16 18 0.38
17 13 0.27
19 7 0.15
20 7 0.15
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:13286900 original size:10 final size:9
Alignment explanation
Indices: 13286879--13286933 Score: 65
Period size: 10 Copynumber: 5.7 Consensus size: 9
13286869 AAAATAGAAT
13286879 AATAAAAAA
1 AATAAAAAA
13286888 AATAAATAAA
1 AATAAA-AAA
13286898 AATAAAAATA
1 AATAAAAA-A
13286908 AATAAAGAAA
1 AATAAA-AAA
*
13286918 AGTAAAATAA
1 AATAAAA-AA
13286928 AATAAA
1 AATAAA
13286934 GATAAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.22
10 29 0.73
11 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (9 bp):
AATAAAAAA
Found at i:13286910 original size:20 final size:20
Alignment explanation
Indices: 13286879--13287001 Score: 74
Period size: 20 Copynumber: 6.0 Consensus size: 20
13286869 AAAATAGAAT
13286879 AATAAAAA-AAATAAATAAA
1 AATAAAAATAAATAAATAAA
*
13286898 AATAAAAATAAATAAAGAAA
1 AATAAAAATAAATAAATAAA
*
13286918 AGT-AAAATAAAATAAAGATAAA
1 AATAAAAAT-AAAT-AA-ATAAA
* * *
13286940 AAGAATATTAAATAAACCT-AA
1 AATAAAAATAAATAAA--TAAA
**
13286961 TCTAATAAATAAATAAATAAA
1 AATAA-AAATAAATAAATAAA
* *
13286982 TAA-ACAAATAAACAAATAAA
1 -AATAAAAATAAATAAATAAA
13287002 TGAAAAAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
19 13 0.17
20 32 0.41
21 11 0.14
22 19 0.24
23 3 0.04
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (20 bp):
AATAAAAATAAATAAATAAA
Found at i:13286971 original size:4 final size:4
Alignment explanation
Indices: 13286964--13287002 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
13286954 AACCTAATCT
* *
13286964 AATA AATA AATA AATA AATA AACA AATA AACA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
13287003 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:13287932 original size:23 final size:23
Alignment explanation
Indices: 13287894--13287937 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13287884 CTGAAAATCG
* *
13287894 AAAAAAAATCAGAACAGATAATT
1 AAAAAAAATAAGAACAAATAATT
*
13287917 AAAAAAAATAATAACAAATAA
1 AAAAAAAATAAGAACAAATAA
13287938 AATAAGATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAAAAAATAAGAACAAATAATT
Found at i:13287986 original size:3 final size:3
Alignment explanation
Indices: 13287978--13288101 Score: 57
Period size: 3 Copynumber: 40.3 Consensus size: 3
13287968 CAAAAACAAA
13287978 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAAT ATAT AACT ATAT ACAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AA-T A-AT A-AT
* * * *
13288024 -AT AA- ATCT AAT -CT AAT AAT AA- AAA AAT -AT ATAT ATAT ATT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT
13288067 ACAT AAT AAT AAT AAAT AAT AA- AAT ACAT AA- AAT A
1 A-AT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT A
13288102 CAAAAGAAAC
Statistics
Matches: 96, Mismatches: 8, Indels: 34
0.70 0.06 0.25
Matches are distributed among these distances:
2 14 0.15
3 52 0.54
4 29 0.30
5 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13288087 original size:47 final size:47
Alignment explanation
Indices: 13287978--13288088 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 47
13287968 CAAAAACAAA
* *
13287978 AATAATAAT-AATAATAATATAATAATAAATATATAACTATATACAT
1 AATAATAATAAATAATAATAAAAAAATAAATATATAACTATATACAT
* * * *
13288024 -ATAA-ATCTAATCTAATAATAAAAAAATATATATATATATTA-ATACAT
1 AATAATA-ATAA-ATAATAATAAAAAAATAAATATATA-ACTATATACAT
13288071 AATAATAATAAATAATAA
1 AATAATAATAAATAATAA
13288089 AATACATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
44 1 0.02
45 5 0.10
46 1 0.02
47 33 0.65
48 10 0.20
49 1 0.02
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (47 bp):
AATAATAATAAATAATAATAAAAAAATAAATATATAACTATATACAT
Found at i:13289399 original size:22 final size:23
Alignment explanation
Indices: 13289354--13289399 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13289344 TAGATTAATC
*
13289354 AACTCAAACTTGAAACAATTTAA
1 AACTCAAACTTGAAACAATATAA
13289377 AACTCAAA-TTGAGAACAA-ATAA
1 AACTCAAACTTGA-AACAATATAA
13289399 A
1 A
13289400 TTTTTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.22
Consensus pattern (23 bp):
AACTCAAACTTGAAACAATATAA
Found at i:13290481 original size:21 final size:21
Alignment explanation
Indices: 13290457--13290497 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13290447 CATTATTTTT
13290457 ATTA-TATAAAATATTAAAATA
1 ATTATTATAAAAT-TTAAAATA
*
13290478 ATTATTTTAAAATTTAAAAT
1 ATTATTATAAAATTTAAAAT
13290498 TAAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTATTATAAAATTTAAAATA
Found at i:13290510 original size:22 final size:22
Alignment explanation
Indices: 13290462--13290510 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
13290452 TTTTTATTAT
* *
13290462 ATAAAATATTAAAATAATTATT
1 ATAAAATATTAAAATAAATATA
*
13290484 TTAAAAT-TTAAAATTAAATATA
1 ATAAAATATTAAAA-TAAATATA
13290506 ATAAA
1 ATAAA
13290511 TTACTAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAATATTAAAATAAATATA
Found at i:13291326 original size:3 final size:3
Alignment explanation
Indices: 13291320--13291346 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13291310 AAAAAAAGTC
13291320 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
13291347 AAGTAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13292955 original size:15 final size:16
Alignment explanation
Indices: 13292935--13292965 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13292925 TGTAAATGAT
13292935 ATATATTTAT-TTTTA
1 ATATATTTATATTTTA
13292950 ATATATTTATATTTTA
1 ATATATTTATATTTTA
13292966 TCATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATATTTATATTTTA
Found at i:13297674 original size:27 final size:27
Alignment explanation
Indices: 13297622--13297672 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13297612 TATTTAGATA
* *
13297622 ATTTTTTATAAATATATATTAATTTAT
1 ATTTTTGATAAATATAAATTAATTTAT
13297649 ATTTTTGATAAAT-TAAATTAATTT
1 ATTTTTGATAAATATAAATTAATTT
13297673 TAATTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
ATTTTTGATAAATATAAATTAATTTAT
Found at i:13298599 original size:21 final size:21
Alignment explanation
Indices: 13298575--13298619 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13298565 TCCAATTAAT
*
13298575 TTAAAAT-AAAATTTTATATTA
1 TTAAAATAAAAAATTTAT-TTA
13298596 TT-AAATAAAAAATTTATTTA
1 TTAAAATAAAAAATTTATTTA
13298616 TTAA
1 TTAA
13298620 CTATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAATAAAAAATTTATTTA
Found at i:13298603 original size:20 final size:20
Alignment explanation
Indices: 13298578--13298619 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13298568 AATTAATTTA
*
13298578 AAAT-AAAATTTTATATTATT
1 AAATAAAAAATTTAT-TTATT
13298598 AAATAAAAAATTTATTTATT
1 AAATAAAAAATTTATTTATT
13298618 AA
1 AA
13298620 CTATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAAAAAATTTATTTATT
Found at i:13299204 original size:13 final size:12
Alignment explanation
Indices: 13299172--13299206 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
13299162 TGACAAAAAA
13299172 TTTATTAAAATT
1 TTTATTAAAATT
13299184 TTTATTAAAATT
1 TTTATTAAAATT
13299196 TTTACTTAAAA
1 TTTA-TTAAAA
13299207 ATATATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTATTAAAATT
Found at i:13299781 original size:19 final size:20
Alignment explanation
Indices: 13299759--13299803 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
13299749 TTTAAAAAAA
13299759 ATTCCTTG-ATTTATTT-TTT
1 ATTCCTTGCATTT-TTTGTTT
*
13299778 ATTCATTGCATTTTTTGTTT
1 ATTCCTTGCATTTTTTGTTT
13299798 -TTCCTT
1 ATTCCTT
13299804 TAATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (20 bp):
ATTCCTTGCATTTTTTGTTT
Found at i:13300527 original size:22 final size:22
Alignment explanation
Indices: 13300484--13300528 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13300474 TATTATTATT
* ***
13300484 AAGTTTTTTTTTTTATTTTTTA
1 AAGTTTGTTTTTTTAAAATTTA
13300506 AAGTTTGTTTTTTTAAAATTTA
1 AAGTTTGTTTTTTTAAAATTTA
13300528 A
1 A
13300529 CAAAATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AAGTTTGTTTTTTTAAAATTTA
Found at i:13303239 original size:22 final size:22
Alignment explanation
Indices: 13303214--13303264 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
13303204 AAAAACTTTT
* *
13303214 AAAATTAAGATTTATATTTTGA
1 AAAATAAAGATATATATTTTGA
*
13303236 AAAATAAAGGTATATATTTT-A
1 AAAATAAAGATATATATTTTGA
13303257 TAAAATAA
1 -AAAATAA
13303265 CTTTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (22 bp):
AAAATAAAGATATATATTTTGA
Found at i:13306132 original size:68 final size:68
Alignment explanation
Indices: 13306045--13306181 Score: 220
Period size: 68 Copynumber: 2.0 Consensus size: 68
13306035 GCAGAATGAA
*
13306045 AGAGGCAATGAGTATTAATTGTGAGTGAGTATTAATTGAGAATACTCAACAGGTTTGTAATTCTT
1 AGAGGCAATGAATATTAATTGTGAGTGAGTATTAATTGAGAATACTCAACAGGTTTGTAATTCTT
13306110 TAC
66 TAC
* * * * *
13306113 AGAGGCCATGAATATTAATTGTGAGTGGGTATTTATTGAGAATACTCTATAGGTTTGTAATTCTT
1 AGAGGCAATGAATATTAATTGTGAGTGAGTATTAATTGAGAATACTCAACAGGTTTGTAATTCTT
13306178 TAC
66 TAC
13306181 A
1 A
13306182 ACTAATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (68 bp):
AGAGGCAATGAATATTAATTGTGAGTGAGTATTAATTGAGAATACTCAACAGGTTTGTAATTCTT
TAC
Found at i:13313995 original size:22 final size:22
Alignment explanation
Indices: 13313970--13314011 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13313960 TTTTTCATAA
13313970 AATA-AAATGTTATAACTATTTT
1 AATAGAAAT-TTATAACTATTTT
*
13313992 AATAGAAATTTATATCTATT
1 AATAGAAATTTATAACTATT
13314012 CATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
AATAGAAATTTATAACTATTTT
Found at i:13314807 original size:52 final size:52
Alignment explanation
Indices: 13314729--13314873 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 52
13314719 GTTTTTAGTG
* * *
13314729 TTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCTA
1 TTAAGAATTCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTA
* *
13314781 TTAAGAATTCCTTTCCTTTTAGAATTCTTCTCTTACAAGTCAAACTTACCTA
1 TTAAGAATTCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTA
* * *
13314833 TTAAGAA-TCCTCTTTCTCTTGGAATTCTTCTTTTGCAAGTC
1 TTAAGAATTCCT-TTCCTCTTAGAATTCTTCTCTTGCAAGTC
13314874 TTCTTGTCCA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 4 0.05
52 78 0.95
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (52 bp):
TTAAGAATTCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTA
Found at i:13314914 original size:11 final size:11
Alignment explanation
Indices: 13314898--13314928 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
13314888 GCAATATCTG
13314898 ACAAATCTCAA
1 ACAAATCTCAA
13314909 ACAAATCTCAA
1 ACAAATCTCAA
13314920 ACAAATCTC
1 ACAAATCTC
13314929 TTATGGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:13315228 original size:25 final size:25
Alignment explanation
Indices: 13315146--13315228 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
13315136 TAAGCTTACT
* *
13315146 TCTTCCCATGTCTCAAACCA-AG-C
1 TCTTCCCATGTCTCGAACCATCGAC
* * ** *
13315169 TCTTCTCATATCTCGAACTGTCAAC
1 TCTTCCCATGTCTCGAACCATCGAC
13315194 TCTTCCCATGTCTCGAACCATCGAC
1 TCTTCCCATGTCTCGAACCATCGAC
*
13315219 TCTTCTCATG
1 TCTTCCCATG
13315229 AAAGGGTAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 15 0.33
25 30 0.67
ACGTcount: A:0.22, C:0.36, G:0.10, T:0.33
Consensus pattern (25 bp):
TCTTCCCATGTCTCGAACCATCGAC
Found at i:13316341 original size:3 final size:3
Alignment explanation
Indices: 13316333--13316361 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13316323 TAAATAAGAA
13316333 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13316362 GATTTTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13318014 original size:3 final size:3
Alignment explanation
Indices: 13318006--13318056 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
13317996 CTAAACACCC
13318006 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13318054 ATT
1 ATT
13318057 TTCATTTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13318074 original size:15 final size:15
Alignment explanation
Indices: 13318056--13318097 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13318046 TTATTATTAT
13318056 TTTCATTTTGTTTCG
1 TTTCATTTTGTTTCG
* *
13318071 TTTCATTTCGTTTCT
1 TTTCATTTTGTTTCG
13318086 TTTC-TTTT-TTTC
1 TTTCATTTTGTTTC
13318098 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 4 0.17
14 3 0.12
15 17 0.71
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (15 bp):
TTTCATTTTGTTTCG
Found at i:13318098 original size:8 final size:8
Alignment explanation
Indices: 13318085--13318123 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
13318075 ATTTCGTTTC
13318085 TTTTCTTT
1 TTTTCTTT
13318093 TTTTCTTT
1 TTTTCTTT
13318101 TTTTCTTT
1 TTTTCTTT
13318109 TATTT-TTT
1 T-TTTCTTT
*
13318117 CTTTCTT
1 TTTTCTT
13318124 CTTCCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 3 0.11
8 22 0.79
9 3 0.11
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:13318106 original size:16 final size:16
Alignment explanation
Indices: 13318085--13318138 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
13318075 ATTTCGTTTC
13318085 TTTTCTTTT-TTTCTTT
1 TTTTCTTTTATTT-TTT
13318101 TTTTCTTTTATTTTTT
1 TTTTCTTTTATTTTTT
* *
13318117 CTTTCTTCTTCCTTTTTT
1 TTTTCTT-TT-ATTTTTT
13318135 TTTT
1 TTTT
13318139 TGGCACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 18 0.56
17 5 0.16
18 9 0.28
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTATTTTTT
Found at i:13323606 original size:75 final size:75
Alignment explanation
Indices: 13323465--13323614 Score: 228
Period size: 75 Copynumber: 2.0 Consensus size: 75
13323455 TTATTGAGCC
* ** *
13323465 TCTACCAAGAGGAACCTTTTTGTAGATAAAAATTTGAAAGTTATTGAGCCTCTGTCTGGAAAAAC
1 TCTACCAAAAGGAACCTTTTTCCAGATAAAAATTTGAAAGTTATTGAGCCTCTGTCTAGAAAAAC
13323530 TTTTTTCAAG
66 TTTTTTCAAG
* * * *
13323540 TCTATCAAAAGGAGCCTTTTTCCAGATAAAAATTTTAAAGTTATTGAGCCTCTGTCTAGAAGAAC
1 TCTACCAAAAGGAACCTTTTTCCAGATAAAAATTTGAAAGTTATTGAGCCTCTGTCTAGAAAAAC
13323605 TTTTTTCAAG
66 TTTTTTCAAG
13323615 ATGAAATTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (75 bp):
TCTACCAAAAGGAACCTTTTTCCAGATAAAAATTTGAAAGTTATTGAGCCTCTGTCTAGAAAAAC
TTTTTTCAAG
Found at i:13323657 original size:55 final size:55
Alignment explanation
Indices: 13323572--13323700 Score: 138
Period size: 55 Copynumber: 2.3 Consensus size: 55
13323562 CAGATAAAAA
* * * *
13323572 TTTTAAAGTTATTGAGCCTCTGTCTAGAAGAACT-TTTTTCAAGATGAAAT-TTTTT
1 TTTTAAAGTTACTGAGCCTCTGACTAGAAG-ACTCTTTTTCAAAATG-AATGATTTT
* * *
13323627 TTTTAAAGTTACTAAGCCTCT-ACATGGAAGAGTCTTTTTCAAAATGAATGATTTT
1 TTTTAAAGTTACTGAGCCTCTGAC-TAGAAGACTCTTTTTCAAAATGAATGATTTT
*
13323682 TTTTAAAGTTGCTGAGCCT
1 TTTTAAAGTTACTGAGCCT
13323701 TTGCTTAGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
54 6 0.10
55 56 0.90
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (55 bp):
TTTTAAAGTTACTGAGCCTCTGACTAGAAGACTCTTTTTCAAAATGAATGATTTT
Found at i:13323758 original size:49 final size:50
Alignment explanation
Indices: 13323705--13323825 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
13323695 GAGCCTTTGC
* * *
13323705 TTAGAGGAGA-TTTTTCTAATATGAAATTTTT-AAG-TAGTTGAACCTTTAT
1 TTAGAGGAGATTTTTTC-AAAATAAAATTTTTAAAGTTA-TTGAACCTCTAT
* *
13323754 TTAGAGGAGCTTTTTTCAAAATAAAATTTTTAAAGTTATTGAGCCTCTAT
1 TTAGAGGAGATTTTTTCAAAATAAAATTTTTAAAGTTATTGAACCTCTAT
* *
13323804 GTAGAGGAGTTTTTTTCAAAAT
1 TTAGAGGAGATTTTTTCAAAAT
13323826 GAAAGATTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
49 21 0.34
50 39 0.63
51 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (50 bp):
TTAGAGGAGATTTTTTCAAAATAAAATTTTTAAAGTTATTGAACCTCTAT
Found at i:13323818 original size:50 final size:48
Alignment explanation
Indices: 13323681--13323825 Score: 134
Period size: 50 Copynumber: 2.9 Consensus size: 48
13323671 TGAATGATTT
** * * *
13323681 TTTTTAAAGTTGCTGAGCCTT-TGCTTAGAGGAGATTTTTCTAATATGAAA
1 TTTTTAAAGTTATTGAGCCTTATG--TAGAGGAGTTTTTTC-AAAATAAAA
* *
13323731 TTTTT-AAG-TAGTTGAACCTTTATTTAGAGGAGCTTTTTTCAAAATAAAA
1 TTTTTAAAGTTA-TTGAGCC-TTATGTAGAGGAG-TTTTTTCAAAATAAAA
13323780 TTTTTAAAGTTATTGAGCCTCTATGTAGAGGAGTTTTTTTCAAAAT
1 TTTTTAAAGTTATTGAGCCT-TATGTAGAGGAG-TTTTTTCAAAAT
13323826 GAAAGATTGC
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
48 1 0.01
49 29 0.37
50 45 0.58
51 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (48 bp):
TTTTTAAAGTTATTGAGCCTTATGTAGAGGAGTTTTTTCAAAATAAAA
Found at i:13323845 original size:137 final size:137
Alignment explanation
Indices: 13323697--13323964 Score: 337
Period size: 137 Copynumber: 2.0 Consensus size: 137
13323687 AAGTTGCTGA
* * *
13323697 GCCTTTGCTTAGAGGAGATTTTTCT-AATATGA-AATTTTTAAGT-AGTTGAACCTT-TATTTAG
1 GCCTTTACTTAGAGAAG-TTTTTCTCAAGATGAGAATTTTTAAGTCA-TT-AACCTTATATTTAG
* * * *
13323758 AGGAGCTTTTTTCAAAATAAAATTTTTAAAGTTATTGAGCCTCTATGTAGAGGAGTTTTTTTCAA
63 AGGAGC-TTTTTCAAAATAAAATTTTTAAAATTATTAAGCCTCTATCTAGAGGAGTTCTTTTCAA
13323823 AATGAAAGATT
127 AATGAAAGATT
* * ** *
13323834 GCCTTTACTTAGAGAAGTTTTTTTCAAGATGAGATTTTTTAAGTCATTAAGGTTATATTTAGATG
1 GCCTTTACTTAGAGAAGTTTTTCTCAAGATGAGAATTTTTAAGTCATTAACCTTATATTTAGAGG
* * *
13323899 AGCTTTTTCAAGATGAAATTTTTAAAATTATTAAGCCTCTATCTAGATGAGTTCTTTTCAAAATG
66 AGCTTTTTCAAAATAAAATTTTTAAAATTATTAAGCCTCTATCTAGAGGAGTTCTTTTCAAAATG
13323964 A
131 A
13323965 GATTTTTTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
136 6 0.05
137 81 0.72
138 24 0.21
139 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.42
Consensus pattern (137 bp):
GCCTTTACTTAGAGAAGTTTTTCTCAAGATGAGAATTTTTAAGTCATTAACCTTATATTTAGAGG
AGCTTTTTCAAAATAAAATTTTTAAAATTATTAAGCCTCTATCTAGAGGAGTTCTTTTCAAAATG
AAAGATT
Found at i:13323911 original size:49 final size:49
Alignment explanation
Indices: 13323853--13323972 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
13323843 TAGAGAAGTT
* ** *
13323853 TTTTTCAAGATGAGATTTTTTAAGTCATTAAGGTTATATTTAGATGAGC
1 TTTTTCAAGATGAGATTTTTTAAATCATTAAGCCTATATCTAGATGAGC
* * * * *
13323902 TTTTTCAAGATGAAATTTTTAAAATTATTAAGCCTCTATCTAGATGAGT
1 TTTTTCAAGATGAGATTTTTTAAATCATTAAGCCTATATCTAGATGAGC
*
13323951 TCTTTTCAAAATGAGATTTTTT
1 T-TTTTCAAGATGAGATTTTTT
13323973 TTTAAGTTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 41 0.71
50 17 0.29
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (49 bp):
TTTTTCAAGATGAGATTTTTTAAATCATTAAGCCTATATCTAGATGAGC
Found at i:13324262 original size:3 final size:3
Alignment explanation
Indices: 13324254--13324314 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
13324244 TGTAAGTACC
13324254 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13324302 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
13324315 TCTTCATTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13326249 original size:18 final size:19
Alignment explanation
Indices: 13326218--13326256 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13326208 AACACTAAAT
**
13326218 AATAAATTTTAATAAA-AA
1 AATAAATTCCAATAAACAA
13326236 AATAAATTCCAATAAACAA
1 AATAAATTCCAATAAACAA
13326255 AA
1 AA
13326257 GAAGTCAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAATTCCAATAAACAA
Found at i:13329743 original size:20 final size:20
Alignment explanation
Indices: 13329718--13329755 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13329708 AACTTATATG
13329718 TTATATT-ATATATTTAAAAA
1 TTATATTAATA-ATTTAAAAA
13329738 TTATATTAATAATTTAAA
1 TTATATTAATAATTTAAA
13329756 TTATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATATTAATAATTTAAAAA
Found at i:13330183 original size:21 final size:21
Alignment explanation
Indices: 13330158--13330198 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13330148 TGTTTATGAT
*
13330158 TATAATTAAATATTACATTAA
1 TATAATCAAATATTACATTAA
* *
13330179 TATAATCAATTATTATATTA
1 TATAATCAAATATTACATTA
13330199 TAATCAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
TATAATCAAATATTACATTAA
Found at i:13342312 original size:21 final size:22
Alignment explanation
Indices: 13342271--13342317 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
13342261 AACTTGTAAC
**
13342271 ATATCATAAATTTTGATTTTTG
1 ATATCATAAAAATTGATTTTTG
13342293 ATATCATAAAAATT-ATTTTTG
1 ATATCATAAAAATTGATTTTTG
13342314 ATAT
1 ATAT
13342318 AAAATTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (22 bp):
ATATCATAAAAATTGATTTTTG
Found at i:13344324 original size:29 final size:30
Alignment explanation
Indices: 13344287--13344343 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13344277 ATTTTAGTTA
13344287 TTATATTTTGA-TTGTA-CTCAAATAAATTT
1 TTATATTTTGATTTGTATC-CAAATAAATTT
*
13344316 TTATCTTTTGATTTGTATCCAAATAAAT
1 TTATATTTTGATTTGTATCCAAATAAAT
13344344 CATTATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 14 0.56
31 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (30 bp):
TTATATTTTGATTTGTATCCAAATAAATTT
Found at i:13344409 original size:30 final size:30
Alignment explanation
Indices: 13344372--13344436 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
13344362 ATTGATTTAT
13344372 ATTAAGGGCTTATTTAGG-TATAAATTAAAG
1 ATTAAGGG-TTATTTAGGATATAAATTAAAG
* * *
13344402 TTTAAGGGTTTTTTTGGATATAAATTAAAG
1 ATTAAGGGTTATTTAGGATATAAATTAAAG
13344432 ATTAA
1 ATTAA
13344437 AAACTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (30 bp):
ATTAAGGGTTATTTAGGATATAAATTAAAG
Found at i:13344448 original size:30 final size:30
Alignment explanation
Indices: 13344414--13344474 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
13344404 TAAGGGTTTT
13344414 TTTGGATATAAATTAAAGA-TTAAAAACTTA
1 TTTGGATATAAATTAAA-ATTTAAAAACTTA
* *
13344444 TTTGGATGTAAATTAAAATTTAAAGACTTA
1 TTTGGATATAAATTAAAATTTAAAAACTTA
13344474 T
1 T
13344475 ATGAGTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.39
Consensus pattern (30 bp):
TTTGGATATAAATTAAAATTTAAAAACTTA
Found at i:13346802 original size:20 final size:19
Alignment explanation
Indices: 13346777--13346816 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13346767 TTGAGTCTAA
13346777 TGTCAAAGTTTATTTGTTGT
1 TGTCAAA-TTTATTTGTTGT
* *
13346797 TGTCAAATTTTTTTTTTGT
1 TGTCAAATTTATTTGTTGT
13346816 T
1 T
13346817 TGGTGAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.62
Consensus pattern (19 bp):
TGTCAAATTTATTTGTTGT
Found at i:13347472 original size:4 final size:4
Alignment explanation
Indices: 13347463--13347487 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13347453 TATAGAGGTT
13347463 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
13347488 AAACACAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:13349492 original size:29 final size:29
Alignment explanation
Indices: 13349431--13349493 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
13349421 CTTAAAAAAT
* *
13349431 AATTTTTGGGCCTATGAAAAACAATGTCG
1 AATTTTTGGGCCTATAAAAAACAAAGTCG
*
13349460 -ATTTTTGGGCTTATAAAAAACAAAGTCG
1 AATTTTTGGGCCTATAAAAAACAAAGTCG
13349488 AATTTT
1 AATTTT
13349494 GAAGTATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (29 bp):
AATTTTTGGGCCTATAAAAAACAAAGTCG
Found at i:13357544 original size:59 final size:58
Alignment explanation
Indices: 13357475--13357623 Score: 156
Period size: 59 Copynumber: 2.5 Consensus size: 58
13357465 TAACAAAGAT
* * *
13357475 GTAACCAAAACCTAAATAAATTTCAACACGTATAA-AACCAACAGAATCTCAACAAATTG
1 GTAACCAAAACCTAAATAAATTTCAACA--AATAATAACCAACAAAAACTCAACAAATTG
* * * * * *
13357534 GTAATCAAAACCCACATAAATTTTAACAAATAATTAACTAACAAAAACTCAACACATTG
1 GTAACCAAAACCTAAATAAATTTCAACAAATAA-TAACCAACAAAAACTCAACAAATTG
* * *
13357593 GTAGCTAAAACCTAAACAAATTTCAACAAAT
1 GTAACCAAAACCTAAATAAATTTCAACAAAT
13357624 TTATAACAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
57 4 0.06
59 68 0.94
ACGTcount: A:0.52, C:0.21, G:0.05, T:0.22
Consensus pattern (58 bp):
GTAACCAAAACCTAAATAAATTTCAACAAATAATAACCAACAAAAACTCAACAAATTG
Found at i:13361393 original size:41 final size:41
Alignment explanation
Indices: 13361318--13361404 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
13361308 AATAATATTT
* *
13361318 ATTTATAATATTTAAAATAATTTATGATATTTTTATTT-TAA
1 ATTTATAATATTTAAAATAATTTATCACATTTTTATTTAT-A
*
13361359 ATTTATAA-A-TTAAAATAATTTTTTCACATATTTTATTTATA
1 ATTTATAATATTTAAAATAA-TTTATCACAT-TTTTATTTATA
13361400 ATTTA
1 ATTTA
13361405 ATATCAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 9 0.22
40 8 0.20
41 22 0.55
42 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (41 bp):
ATTTATAATATTTAAAATAATTTATCACATTTTTATTTATA
Found at i:13362598 original size:52 final size:52
Alignment explanation
Indices: 13362520--13362665 Score: 208
Period size: 52 Copynumber: 2.8 Consensus size: 52
13362510 GATTTGCAAA
**
13362520 AGAAGAATTCTAAAAGAAAGAT-GATTCTTAATAGGTAAGTTTGACTTACAAG-
1 AGAAGAATTCTAAGGGAAA-ATGGATTCTTAATAGGTAAGTTTGACTTAC-AGT
13362572 AGAAGAATTCTAAGGGAAAATGGATTCTTAATAGGTAAGTTTGACTTACAGT
1 AGAAGAATTCTAAGGGAAAATGGATTCTTAATAGGTAAGTTTGACTTACAGT
* * *
13362624 AGAAGAATTATAAGGG-AGATGGATTCTTAATGGGTAAGTTTG
1 AGAAGAATTCTAAGGGAAAATGGATTCTTAATAGGTAAGTTTG
13362666 TATGGTTATA
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
51 28 0.32
52 59 0.68
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (52 bp):
AGAAGAATTCTAAGGGAAAATGGATTCTTAATAGGTAAGTTTGACTTACAGT
Done.